Blender is only rendering a composite of a movie clip that I made and not the full scene, which I want it to
This is  the expected behaviour: if in the post processing tab compositor and sequencer are checked, the output will be overwritten by what is resulting in the compositor and sequencer windows.
So, to solve, uncheck thoose options or create in the compositor a render layer input and plug it in the compositor output node.
Be sure that no video sequence is in the VSE window also (or it will overwrite the output if checked in the post processing tab).